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SWAN: Subset-quantile within array normalization for illumina infinium HumanMethylation450 BeadChips.
Maksimovic J, Gordon L, Oshlack A. Maksimovic J, et al. Genome Biol. 2012 Jun 15;13(6):R44. doi: 10.1186/gb-2012-13-6-r44. Genome Biol. 2012. PMID: 22703947 Free PMC article.
Genome-scale profiling reveals a subset of genes regulated by DNA methylation that program somatic T-cell phenotypes in humans.
Martino D, Maksimovic J, Joo JH, Prescott SL, Saffery R. Martino D, et al. Among authors: maksimovic j. Genes Immun. 2012 Jul;13(5):388-98. doi: 10.1038/gene.2012.7. Epub 2012 Apr 12. Genes Immun. 2012. PMID: 22495533
Genome-wide DNA methylation analysis identifies hypomethylated genes regulated by FOXP3 in human regulatory T cells.
Zhang Y, Maksimovic J, Naselli G, Qian J, Chopin M, Blewitt ME, Oshlack A, Harrison LC. Zhang Y, et al. Among authors: maksimovic j. Blood. 2013 Oct 17;122(16):2823-36. doi: 10.1182/blood-2013-02-481788. Epub 2013 Aug 23. Blood. 2013. PMID: 23974203 Free PMC article.
Paediatric leukaemia DNA methylation profiling using MBD enrichment and SOLiD sequencing on archival bone marrow smears.
Wong NC, Meredith GD, Marnellos G, Dudas M, Parkinson-Bates M, Halemba MS, Chatterton Z, Maksimovic J, Ashley DM, Mechinaud F, Craig JM, Saffery R. Wong NC, et al. Among authors: maksimovic j. Gigascience. 2015 Mar 18;4:11. doi: 10.1186/s13742-015-0050-0. eCollection 2015. Gigascience. 2015. PMID: 25789165 Free PMC article.
Removing unwanted variation in a differential methylation analysis of Illumina HumanMethylation450 array data.
Maksimovic J, Gagnon-Bartsch JA, Speed TP, Oshlack A. Maksimovic J, et al. Nucleic Acids Res. 2015 Sep 18;43(16):e106. doi: 10.1093/nar/gkv526. Epub 2015 May 18. Nucleic Acids Res. 2015. PMID: 25990733 Free PMC article.
missMethyl: an R package for analyzing data from Illumina's HumanMethylation450 platform.
Phipson B, Maksimovic J, Oshlack A. Phipson B, et al. Among authors: maksimovic j. Bioinformatics. 2016 Jan 15;32(2):286-8. doi: 10.1093/bioinformatics/btv560. Epub 2015 Sep 30. Bioinformatics. 2016. PMID: 26424855
A cross-package Bioconductor workflow for analysing methylation array data.
Maksimovic J, Phipson B, Oshlack A. Maksimovic J, et al. F1000Res. 2016 Jun 8;5:1281. doi: 10.12688/f1000research.8839.3. eCollection 2016. F1000Res. 2016. PMID: 27347385 Free PMC article.
[No authors listed] [No authors listed] PMID: 27540469
[No authors listed] [No authors listed] PMID: 28439407
Epigenome-wide analysis in newborn blood spots from monozygotic twins discordant for cerebral palsy reveals consistent regional differences in DNA methylation.
Mohandas N, Bass-Stringer S, Maksimovic J, Crompton K, Loke YJ, Walstab J, Reid SM, Amor DJ, Reddihough D, Craig JM. Mohandas N, et al. Among authors: maksimovic j. Clin Epigenetics. 2018 Feb 23;10:25. doi: 10.1186/s13148-018-0457-4. eCollection 2018. Clin Epigenetics. 2018. PMID: 29484035 Free PMC article.
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